Locus 7373

Sequence ID 3R_DroMel_CAF1
Location 19,560,579 – 19,560,671
Length 92
Max. P 0.999278
window11916 window11917

overview

Window 6

Location 19,560,579 – 19,560,671
Length 92
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 90.53
Mean single sequence MFE -23.37
Consensus MFE -19.50
Energy contribution -19.34
Covariance contribution -0.16
Combinations/Pair 1.05
Mean z-score -2.63
Structure conservation index 0.83
SVM decision value 2.86
SVM RNA-class probability 0.997447
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19560579 92 + 27905053
GAUGUAGAAAAAACAUAAACCAUAAAACUGCUGCAACAAGUGAAGCAGCUUUGUCAAGUGCAUUGCCGCUUCCUUGUUUU-UUU---UUUU-UU-----UU--U
..(((((.......................)))))(((((.(((((.((..(((.....)))..)).))))))))))...-...---....-..-----..--. ( -19.60)
>DroSec_CAF1 3321 94 + 1
GAUGUAGAA-AAACAUAAACCAUAAAACUGCUGCAACAAGUGAAGCAGCUUUGUCAAGUGCAUUGCCGCUUCCUUGUUUU-UUUACAUUUU-UU-----UU--U
(((((((((-(((((..............(((......)))(((((.((..(((.....)))..)).)))))..))))))-))))))))..-..-----..--. ( -25.60)
>DroSim_CAF1 3336 96 + 1
GAUGUAGAA-AAACAUAAACCAUAAAACUGCUGCAACAAGUGAAGCAGCUUUGUCAAGUGCAUUGCCGCUUCCUUGUUUUUUUUACAUUUUUUU-----UU--U
(((((((((-((........((......))....((((((.(((((.((..(((.....)))..)).)))))))))))))))))))))).....-----..--. ( -24.10)
>DroEre_CAF1 3443 86 + 1
GAUGUGGAA-AAACAUAAACCAUAAAACUGCUGCAACAAGUGAAGCAGCUUUGUCAAGUGCAUUGCCGCUUCCUUGUUUU-UUU---GUU-------------A
..(((((..-.........))))).(((......((((((.(((((.((..(((.....)))..)).)))))))))))..-...---)))-------------. ( -21.80)
>DroYak_CAF1 3321 98 + 1
GAUGUAGAA-AAACAUAAACCAUAAAACUGCUGCAACAAGUGAAGCAGCUUUGUCAAGUGCAUUGCCGCUUCCUUGUUUU-UUU---UUUU-UUGUUGGUUUCA
.((((....-..))))(((((((((((.......((((((.(((((.((..(((.....)))..)).)))))))))))..-...---..))-))).)))))).. ( -25.74)
>consensus
GAUGUAGAA_AAACAUAAACCAUAAAACUGCUGCAACAAGUGAAGCAGCUUUGUCAAGUGCAUUGCCGCUUCCUUGUUUU_UUU___UUUU_UU_____UU__U
..(((((.......................)))))(((((.(((((.((..(((.....)))..)).))))))))))........................... (-19.50 = -19.34 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 7

Location 19,560,579 – 19,560,671
Length 92
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 90.53
Mean single sequence MFE -23.20
Consensus MFE -19.80
Energy contribution -19.80
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.83
Structure conservation index 0.85
SVM decision value 3.48
SVM RNA-class probability 0.999278
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19560579 92 - 27905053
A--AA-----AA-AAAA---AAA-AAAACAAGGAAGCGGCAAUGCACUUGACAAAGCUGCUUCACUUGUUGCAGCAGUUUUAUGGUUUAUGUUUUUUCUACAUC
.--..-----((-((..---...-..((((((((((((((..(((....).))..)))))))).)))))).......)))).......((((.......)))). ( -20.54)
>DroSec_CAF1 3321 94 - 1
A--AA-----AA-AAAAUGUAAA-AAAACAAGGAAGCGGCAAUGCACUUGACAAAGCUGCUUCACUUGUUGCAGCAGUUUUAUGGUUUAUGUUU-UUCUACAUC
.--..-----.(-((((((((((-..((((((((((((((..(((....).))..)))))))).))))))....((......)).)))))))))-))....... ( -24.10)
>DroSim_CAF1 3336 96 - 1
A--AA-----AAAAAAAUGUAAAAAAAACAAGGAAGCGGCAAUGCACUUGACAAAGCUGCUUCACUUGUUGCAGCAGUUUUAUGGUUUAUGUUU-UUCUACAUC
.--..-----..(((((((((((...((((((((((((((..(((....).))..)))))))).))))))....((......)).)))))))))-))....... ( -24.10)
>DroEre_CAF1 3443 86 - 1
U-------------AAC---AAA-AAAACAAGGAAGCGGCAAUGCACUUGACAAAGCUGCUUCACUUGUUGCAGCAGUUUUAUGGUUUAUGUUU-UUCCACAUC
.-------------...---...-..((((((((((((((..(((....).))..)))))))).))))))............(((.........-..))).... ( -20.40)
>DroYak_CAF1 3321 98 - 1
UGAAACCAACAA-AAAA---AAA-AAAACAAGGAAGCGGCAAUGCACUUGACAAAGCUGCUUCACUUGUUGCAGCAGUUUUAUGGUUUAUGUUU-UUCUACAUC
..((((((..((-((..---...-..((((((((((((((..(((....).))..)))))))).)))))).......)))).))))))((((..-....)))). ( -26.84)
>consensus
A__AA_____AA_AAAA___AAA_AAAACAAGGAAGCGGCAAUGCACUUGACAAAGCUGCUUCACUUGUUGCAGCAGUUUUAUGGUUUAUGUUU_UUCUACAUC
..........................((((((((((((((..(((....).))..)))))))).)))))).................................. (-19.80 = -19.80 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:44:17 2006